Title: A more elaborative way to check codon quality: an open source program

Authors: Rakesh Kumar Shardiwal, S.S. Sohrab

Addresses: Genseq Sdn Bhd, Cyberjaya 63000, Malaysia. ' JK Agri Genetics, Hyderabad – 500016, India

Abstract: Relative Synonymous Codon Usage (RSCU) and Relative Adaptiveness of a Codon (RAC) table bias importance in gene expression are well documented in the literature. However, to improve the gene expression we need to figure out which codons are optimal for the expression in order to synthesise an appropriate DNA sequence. An alternative to the manual approach, which is obviously a tedious task, is to set up software on your computer to perform this. Though such kinds of programs are available on the internet, none of them are open-source libraries. Here, one can use our Perl program to do his or her task more easily and efficiently. It is free for everyone.

Keywords: relative synonymous codons; RAC; relative adaptiveness; codon quality; bioinformatics; Perl; Bioperl; codons; expression analysis; open source programs; gene expression; synthesis; DNA sequences.

DOI: 10.1504/IJBRA.2010.034071

International Journal of Bioinformatics Research and Applications, 2010 Vol.6 No.3, pp.223 - 229

Published online: 07 Jul 2010 *

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